Trying to brew upgrade ffmpeg on OSX 10.12 Sierra but when it arrived to install rust I had the following error:
make: error: unable to find utility "make", not a developer tool or in PATH
xcodebuild: error: SDK "/Library/Developer/CommandLineTools/SDKs/MacOSX10.13.sdk" cannot be located.
clang: error: unable to find utility "clang", not a developer tool or in PATH
But which make gives /usr/bin/make and xcrun make is recognized and
ls -l /Library/Developer/CommandLineTools/SDKs/MacOSX10.13.sdk gives
lrwxr-xr-x 1 root wheel 10 Dec 21 2017 /Library/Developer/CommandLineTools/SDKs/MacOSX10.13.sdk -> MacOSX.sdk
How can I force the rust install to use /usr/bin/make instead of the XTools one? Or something else.
EDIT
I have rustc 1.46.0 which is the dependency that Homebrew wants ./configure --prefix=/usr/local/Cellar/rust/1.46.0 --release-channel=stable
Edit the Homebrew formulae
brew edit rust
and comment the line
ENV["SDKROOT"] = MacOS.sdk_path
then Rust can be installed (it's quite long).
Related
I am getting a strange error when trying to compile a simple fortran-90 file using gfortran. I am working on a macOS mojave system. I have gfortran 8.2.0 installed and I checked to be sure of this by doing the following:
Input: gfortran --version
Output: GNU Fortran (GCC) 8.2.0
Copyright (C) 2018 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.
There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE.
Which indicates that gfortran installed correctly and I also confirmed this by typing simply: gfortran, into the terminal, which returns:
gfortran: fatal error: no input files
compilation terminated.
However, when I try to compile my file like so:
gfortran hello.f90 -o hello.x
I get an error which reads:
ld: library not found for -lSystem
collect2: error: ld returned 1 exit status
I've tried compiling in different ways and I also tried setting the LD_LIBRARY_PATH in .bash_profile as described by https://gcc.gnu.org/wiki/GFortranBinaries32Linux but I still get the same error. The gfortran directory has the pathname: /usr/local/gfortran, however another gfortran which is not a directory can be found in /usr/local/bin
Typing:
which gfortran
Outputs:
/usr/local/bin/gfortran
And a long list search of this directory:
Input: ls -l /usr/local/bin/gfortran
Output: lrwxr-xr-x 1 root wheel 32 15 May 14:07
/usr/local/bin/gfortran -> /usr/local/gfortran/bin/gfortran
How can I fix this where everything seems to be correctly installed?
Any help would be greatly appreciated!
On macOS Big Sur v11.1:
Relevant SO post: https://apple.stackexchange.com/questions/408999/gfortran-compiler-error-on-mac-os-big-sur
The fix is to add the stdlib to your $LIBRARY_PATH. For some reason or another it isn't in your standard $PATH anymore on 11.1.
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
(or add it to login file and restart terminal).
I added this to my ~/.profile:
export SDKROOT=$(xcrun --sdk macosx --show-sdk-path)
export LIBRARY_PATH="$LIBRARY_PATH:$SDKROOT/usr/lib"
And it works.
I'll also chime in (19 Dec 2020) that I just updated from MacOS Mojave to Catalina and suddenly got this error.
It resolved itself with
brew reinstall gcc
brew reinstall gfortran
Update: I tried what was suggested and installed the gfortran build from the gcc package using homebrew which gave me a newer version of gfortran and my problem was fixed!
I had the same problem, but installing gfortran build from the gcc package using homebrew did not help. Instead, I installed the whole gcc using homebrew:
brew install gcc
and that solved the problem.
For those using MacPorts.
# Installed `gcc8` and `gcc_select`
sudo port install gcc_select gcc8
# then to create "gfortran" softlink to "gfortran-mp-8"
sudo port select --set gcc gcc8
# and added to my .profile
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
I did ls -l /Library/Developer/CommandLineTools/SDKs/ and found that Xcode had installed one SDK for Catalina and one for Big Sur. I changed the soft link for MacOSX.sdk to point to the Catalina version.
Just placed this line at the end of .zshrc:
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
and ran my Fortran code again to compile – success! The issue with -lSystem has been solved in my macOS system.
I had this problem, and I'd tried lots of thing to solve the problem, but only using these "both" commands solved it:
brew reinstall gcc
brew reinstall gfortran
I recently had this
ld: library not found for -lSystem
problem after upgrading Mac OS from v10 to v11 (Big Sur). I am using Xcode 12.3 and I used brew install gcc to install gfortran 10.2.0. I still saw the error after trying brew reinstall gcc. I was able to solve the problem using:
brew install gfortran
but I do not know why this works.
I am getting a strange error when trying to compile a simple fortran-90 file using gfortran. I am working on a macOS mojave system. I have gfortran 8.2.0 installed and I checked to be sure of this by doing the following:
Input: gfortran --version
Output: GNU Fortran (GCC) 8.2.0
Copyright (C) 2018 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.
There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE.
Which indicates that gfortran installed correctly and I also confirmed this by typing simply: gfortran, into the terminal, which returns:
gfortran: fatal error: no input files
compilation terminated.
However, when I try to compile my file like so:
gfortran hello.f90 -o hello.x
I get an error which reads:
ld: library not found for -lSystem
collect2: error: ld returned 1 exit status
I've tried compiling in different ways and I also tried setting the LD_LIBRARY_PATH in .bash_profile as described by https://gcc.gnu.org/wiki/GFortranBinaries32Linux but I still get the same error. The gfortran directory has the pathname: /usr/local/gfortran, however another gfortran which is not a directory can be found in /usr/local/bin
Typing:
which gfortran
Outputs:
/usr/local/bin/gfortran
And a long list search of this directory:
Input: ls -l /usr/local/bin/gfortran
Output: lrwxr-xr-x 1 root wheel 32 15 May 14:07
/usr/local/bin/gfortran -> /usr/local/gfortran/bin/gfortran
How can I fix this where everything seems to be correctly installed?
Any help would be greatly appreciated!
On macOS Big Sur v11.1:
Relevant SO post: https://apple.stackexchange.com/questions/408999/gfortran-compiler-error-on-mac-os-big-sur
The fix is to add the stdlib to your $LIBRARY_PATH. For some reason or another it isn't in your standard $PATH anymore on 11.1.
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
(or add it to login file and restart terminal).
I added this to my ~/.profile:
export SDKROOT=$(xcrun --sdk macosx --show-sdk-path)
export LIBRARY_PATH="$LIBRARY_PATH:$SDKROOT/usr/lib"
And it works.
I'll also chime in (19 Dec 2020) that I just updated from MacOS Mojave to Catalina and suddenly got this error.
It resolved itself with
brew reinstall gcc
brew reinstall gfortran
Update: I tried what was suggested and installed the gfortran build from the gcc package using homebrew which gave me a newer version of gfortran and my problem was fixed!
I had the same problem, but installing gfortran build from the gcc package using homebrew did not help. Instead, I installed the whole gcc using homebrew:
brew install gcc
and that solved the problem.
For those using MacPorts.
# Installed `gcc8` and `gcc_select`
sudo port install gcc_select gcc8
# then to create "gfortran" softlink to "gfortran-mp-8"
sudo port select --set gcc gcc8
# and added to my .profile
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
I did ls -l /Library/Developer/CommandLineTools/SDKs/ and found that Xcode had installed one SDK for Catalina and one for Big Sur. I changed the soft link for MacOSX.sdk to point to the Catalina version.
Just placed this line at the end of .zshrc:
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
and ran my Fortran code again to compile – success! The issue with -lSystem has been solved in my macOS system.
I had this problem, and I'd tried lots of thing to solve the problem, but only using these "both" commands solved it:
brew reinstall gcc
brew reinstall gfortran
I recently had this
ld: library not found for -lSystem
problem after upgrading Mac OS from v10 to v11 (Big Sur). I am using Xcode 12.3 and I used brew install gcc to install gfortran 10.2.0. I still saw the error after trying brew reinstall gcc. I was able to solve the problem using:
brew install gfortran
but I do not know why this works.
I am getting a strange error when trying to compile a simple fortran-90 file using gfortran. I am working on a macOS mojave system. I have gfortran 8.2.0 installed and I checked to be sure of this by doing the following:
Input: gfortran --version
Output: GNU Fortran (GCC) 8.2.0
Copyright (C) 2018 Free Software Foundation, Inc.
This is free software; see the source for copying conditions.
There is NO warranty; not even for MERCHANTABILITY or FITNESS FOR A
PARTICULAR PURPOSE.
Which indicates that gfortran installed correctly and I also confirmed this by typing simply: gfortran, into the terminal, which returns:
gfortran: fatal error: no input files
compilation terminated.
However, when I try to compile my file like so:
gfortran hello.f90 -o hello.x
I get an error which reads:
ld: library not found for -lSystem
collect2: error: ld returned 1 exit status
I've tried compiling in different ways and I also tried setting the LD_LIBRARY_PATH in .bash_profile as described by https://gcc.gnu.org/wiki/GFortranBinaries32Linux but I still get the same error. The gfortran directory has the pathname: /usr/local/gfortran, however another gfortran which is not a directory can be found in /usr/local/bin
Typing:
which gfortran
Outputs:
/usr/local/bin/gfortran
And a long list search of this directory:
Input: ls -l /usr/local/bin/gfortran
Output: lrwxr-xr-x 1 root wheel 32 15 May 14:07
/usr/local/bin/gfortran -> /usr/local/gfortran/bin/gfortran
How can I fix this where everything seems to be correctly installed?
Any help would be greatly appreciated!
On macOS Big Sur v11.1:
Relevant SO post: https://apple.stackexchange.com/questions/408999/gfortran-compiler-error-on-mac-os-big-sur
The fix is to add the stdlib to your $LIBRARY_PATH. For some reason or another it isn't in your standard $PATH anymore on 11.1.
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
(or add it to login file and restart terminal).
I added this to my ~/.profile:
export SDKROOT=$(xcrun --sdk macosx --show-sdk-path)
export LIBRARY_PATH="$LIBRARY_PATH:$SDKROOT/usr/lib"
And it works.
I'll also chime in (19 Dec 2020) that I just updated from MacOS Mojave to Catalina and suddenly got this error.
It resolved itself with
brew reinstall gcc
brew reinstall gfortran
Update: I tried what was suggested and installed the gfortran build from the gcc package using homebrew which gave me a newer version of gfortran and my problem was fixed!
I had the same problem, but installing gfortran build from the gcc package using homebrew did not help. Instead, I installed the whole gcc using homebrew:
brew install gcc
and that solved the problem.
For those using MacPorts.
# Installed `gcc8` and `gcc_select`
sudo port install gcc_select gcc8
# then to create "gfortran" softlink to "gfortran-mp-8"
sudo port select --set gcc gcc8
# and added to my .profile
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
I did ls -l /Library/Developer/CommandLineTools/SDKs/ and found that Xcode had installed one SDK for Catalina and one for Big Sur. I changed the soft link for MacOSX.sdk to point to the Catalina version.
Just placed this line at the end of .zshrc:
export LIBRARY_PATH="$LIBRARY_PATH:/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/lib"
and ran my Fortran code again to compile – success! The issue with -lSystem has been solved in my macOS system.
I had this problem, and I'd tried lots of thing to solve the problem, but only using these "both" commands solved it:
brew reinstall gcc
brew reinstall gfortran
I recently had this
ld: library not found for -lSystem
problem after upgrading Mac OS from v10 to v11 (Big Sur). I am using Xcode 12.3 and I used brew install gcc to install gfortran 10.2.0. I still saw the error after trying brew reinstall gcc. I was able to solve the problem using:
brew install gfortran
but I do not know why this works.
One way of installing gcc with openMP support on OSX is using Homebrew. However, when I follow the usual instruction of
brew reinstall gcc --without-multilib
It gives me a warning that there is no formula corresponding to the --without-multilib option and hence this will have no effect. Consequently, I do not have openMP support after this reinstallation process. Here is the detailed terminal output.
poulin8:02-prange-parallel-loops poulingroup$ brew --version
Homebrew 1.3.6
Homebrew/homebrew-core (git revision b5afc; last commit 2017-10-27)
poulin8:02-prange-parallel-loops poulingroup$ brew reinstall gcc --without-multilib
==> Reinstalling gcc
Warning: gcc: this formula has no --without-multilib option so it will be ignored!
==> Downloading https://homebrew.bintray.com/bottles/gcc-7.2.0.el_capitan.bottle
Already downloaded: /Users/poulingroup/Library/Caches/Homebrew/gcc-7.2.0.el_capitan.bottle.tar.gz
==> Pouring gcc-7.2.0.el_capitan.bottle.tar.gz
🍺 /usr/local/Cellar/gcc/7.2.0: 1,486 files, 289.8MB
poulin8:02-prange-parallel-loops poulingroup$
Upon including omp.h in a file and compiling, I get the error
julia.c:447:10: fatal error: 'omp.h' file not found
#include <omp.h>
^
1 error generated.
error: command 'cc' failed with exit status 1
Could someone please help me with installing gcc on OSX with openMP support?
If you can substitute clang for gcc I was able to get clang to compile OpenMP programs quite easily. I built the latest version of LLVM/clang and used homebrew to install libomp via brew install libomp.
Full steps were something like:
mkdir omp_clang && cd omp_clang
git clone https://github.com/llvm-mirror/llvm.git -b release_60
git clone https://github.com/llvm-mirror/clang.git llvm/tools/clang -b release_60
mkdir build && cd build
cmake ../llvm
make
brew install libomp
./bin/clang -fopenmp=libomp ~/openmp_program.c
Since upgrading to Yosemite I cannot compile with gfortran. Initially I was getting "segmentation fault 11", then I:
Updated to gcc v.5.0 from http://hpc.sourceforge.net/
Re-installed Xcode command line utilities v.6.1.1
After doing the above, I am able to compile very simple fortran programs but the more complex code that I run gives me the following error:
gfortran: error: libgfortran.spec: No such file or directory
But in fact, the libgfortran.spec file is located in /usr/local/lib
ls /usr/local/lib | grep gfortran
libgfortran.3.dylib
libgfortran.a
libgfortran.dylib
libgfortran.la
libgfortran.spec
All of the gcc binaries are located in /usr/local/bin
which gfortran
/usr/local/bin/gfortran
And my path seems to be OK
echo $PATH
/usr/local/lib:/usr/local/bin:/usr/local:/usr/local/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/lib:/usr/texbin:/Users/MattCooper/bin:/Applications/MRT/bin
I also tried re-installing gcc with homebrew:
brew install gcc
Error: gcc-4.9.2 already installed
To install this version, first 'brew unlink gcc'
However, I get v. 5.0 when I ask 'gcc --version':
gcc --version
gcc (GCC) 5.0.0 20141005 (experimental)
When I try to unlink or upgrade gcc with homebrew I get a permission denied error:
brew unlink gcc
Unlinking /usr/local/Cellar/gcc/4.9.2... Error: Permission denied - /usr/local/bin/c++-4.9
similarly
brew upgrade gcc
Permission denied - /usr/local/bin/c++-4.9
Finally
which gcc
/usr/local/bin/gcc
Please help. Many thanks ahead of time. Please let me know what I've forgotten to include.
I ended up solving the problem via homebrew. I can't pinpoint the exact source of the problem but it was related to the fact that I installed gcc v4.9 from http://hpc.sourceforge.net/, then somewhere along the way I re-installed and/or updated gcc with homebrew. Then, after upgrading to Yosemite, I installed gcc v5 from http://hpc.sourceforge.net/. Somewhere within that process, the binaries within /usr/local/bin and usr/local/lib were not linked properly.
The main clue was the Permission Denied error when trying to run 'brew upgrade gcc'. I found a solution here: Brew doctor says: "Warning: /usr/local/include isn't writable."
To fix, I used:
brew doctor
which returned a bunch of directories that were not writeable, for example usr/local/lib, thus brew was unable to ugrade gcc to the v5.0 and link everything.
I went through and issued:
sudo chown -R $USER /usr/local
and did this for all of the other non-writeable directories returned by 'brew doctor'. Then, I was able to use brew to ugrade gcc:
brew upgrade gcc
During the ugrade, homebrew returned an error that stated it could not finish the upgrade because there was already an existing gfortran file located in:
/usr/local/bin/gfortran
To fix, homebrew suggested I run:
brew -link gcc
at which point everything worked. Interesting (to me, because I don't fully understand all of this) when I ask brew to clean things up, I get:
brew cleanup
Warning: Skipping (old) /usr/local/Cellar/gcc/4.9.2 due to it being linked
There's some similar information located here: How to link to a new gcc version with brew?
Similar to that user, when I look in my cellar, I find two versions of gcc, but I'm not sure if I need both
ls /usr/local/Cellar/gcc
4.9.2 4.9.2_1
I had a similar issue with similar solution. It could not find this file:
gfortran: error: libgfortran.spec: No such file or directory
So my problem was that I had installed gcc through hpc.sourceforge.net and through homebrew. I had to uninstall the homebrew version
brew uninstall gcc
Then I had to reinstall the gcc from hpc.sourceforge.net
sudo tar -xvf gcc-4.9-bin.tar.gz -C /
This worked for me when I wanted to revert to gcc 4.9 from hpc.sourceforge.net, using Yosemite.